Motif discovery using an immune genetic algorithm.

[1]  G. Stormo Computer methods for analyzing sequence recognition of nucleic acids. , 1988, Annual Review of Biophysics and Biophysical Chemistry.

[2]  Jun S. Liu,et al.  Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment. , 1993, Science.

[3]  Charles Elkan,et al.  Fitting a Mixture Model By Expectation Maximization To Discover Motifs In Biopolymer , 1994, ISMB.

[4]  John Riedl,et al.  Generalized suffix trees for biological sequence data: applications and implementation , 1994, 1994 Proceedings of the Twenty-Seventh Hawaii International Conference on System Sciences.

[5]  Alan S. Perelson,et al.  The Evolution of Emergent Organization in Immune System Gene Libraries , 1995, ICGA.

[6]  J. Fickett,et al.  Identification of regulatory regions which confer muscle-specific gene expression. , 1998, Journal of molecular biology.

[7]  Philipp Bucher,et al.  The Eukaryotic Promoter Database EPD , 1998, Nucleic Acids Res..

[8]  Licheng Jiao,et al.  A novel genetic algorithm based on immunity , 2000, IEEE Trans. Syst. Man Cybern. Part A.

[9]  Gary D. Stormo,et al.  DNA binding sites: representation and discovery , 2000, Bioinform..

[10]  Kathleen Marchal,et al.  A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling , 2001, Bioinform..

[11]  Bin Ma,et al.  Finding Similar Regions in Many Sequences , 2002, J. Comput. Syst. Sci..

[12]  A. Sandelin,et al.  Integrated analysis of yeast regulatory sequences for biologically linked clusters of genes , 2003, Functional & Integrative Genomics.

[13]  Wei Wu,et al.  LOGOS: a modular Bayesian model for de novo motif detection , 2003, Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003.

[14]  T. Hubbard,et al.  NestedMICA: sensitive inference of over-represented motifs in nucleic acid sequence , 2005, Nucleic acids research.

[15]  Hitoshi Iba,et al.  Identification of weak motifs in multiple biological sequences using genetic algorithm , 2006, GECCO.

[16]  Zhi Wei,et al.  GAME: detecting cis-regulatory elements using a genetic algorithm , 2006, Bioinform..

[17]  Carlos Reyes-Rico Finding DNA Motifs Using Genetic Algorithms , 2006, 2006 Fifth Mexican International Conference on Artificial Intelligence.

[18]  Kazuhito Shida,et al.  Hybrid Gibbs-sampling algorithm for challenging motif discovery: GibbsDST. , 2006, Genome informatics. International Conference on Genome Informatics.

[19]  Francis Y. L. Chin,et al.  An Efficient Algorithm for String Motif Discovery , 2006, APBC.

[20]  Andrew M. Tyrrell,et al.  Regulatory Motif Discovery Using a Population Clustering Evolutionary Algorithm , 2007, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[21]  Kwong-Sak Leung,et al.  TFBS identification based on genetic algorithm with combined representations and adaptive post-processing , 2008, Bioinform..

[22]  Joseph C. Aman,et al.  An Evaluation of Information Content as a Metric for the Inference of Putative Conserved Noncoding Regions in DNA Sequences Using a Genetic Algorithms Approach , 2008, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

[23]  Mathieu Blanchette,et al.  Seeder: discriminative seeding DNA motif discovery , 2008, Bioinform..

[24]  Eric P. Xing,et al.  BayCis: A Bayesian Hierarchical HMM for Cis-Regulatory Module Decoding in Metazoan Genomes , 2008, RECOMB.

[25]  Gary B. Fogel,et al.  Evolutionary computation for discovery of composite transcription factor binding sites , 2008, Nucleic acids research.